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Steric repulsion introduced by loop constraints modulates the microphase separation of chromatins

文献类型：期刊论文

作者Wei, Jiachen6; Xue, Yue4,5; Liu, Yawei3; Tian, Hao4,5; Shao, Yingfeng2; Gao, Yi Qin1,4,5,6; Shao YF(邵颖峰)
刊名JOURNAL OF CHEMICAL PHYSICS
出版日期2024-02-07
卷号160期号:5页码:9
ISSN号0021-9606
DOI10.1063/5.0189692
通讯作者Wei, Jiachen(weijiachen@cpl.ac.cn) ; Gao, Yi Qin(gaoyq@pku.edu.cn)
英文摘要Within the confines of a densely populated cell nucleus, chromatin undergoes intricate folding, forming loops, domains, and compartments under the governance of topological constraints and phase separation. This coordinated process inevitably introduces interference between different folding strategies. In this study, we model interphase chromatins as block copolymers with hetero-hierarchical loops within a confined system. Employing dissipative particle dynamics simulations and scaling analysis, we aim to explain how the structure and distribution of loop domains modulate the microphase separation of chromatins. Our results highlight the correlation between the microphase separation of the copolymer and the length, heterogeneity, and hierarchically nested levels of the loop domains. This correlation arises from steric repulsion intrinsic to loop domains. The steric repulsion induces variations in chain stiffness (including local orientation correlations and the persistence length), thereby influencing the degree of phase separation. Through simulations of block copolymers with distinct groups of hetero-hierarchical loop anchors, we successfully reproduce changes in phase separation across diverse cell lines, under fixed interaction parameters. These findings, in qualitative alignment with Hi-C data, suggest that the variations of loop constraints alone possess the capacity to regulate higher-order structures and the gene expressions of interphase chromatins.
WOS关键词MECHANISMS ; BRUSHES
资助项目National Natural Science Foundation of China[92053202] ; National Natural Science Foundation of China[22050003]
WOS研究方向Chemistry ; Physics
语种英语
WOS记录号WOS:001158735500012
资助机构National Natural Science Foundation of China
源URL[http://dspace.imech.ac.cn/handle/311007/94342]  
专题力学研究所_非线性力学国家重点实验室
通讯作者Wei, Jiachen; Gao, Yi Qin
作者单位1.Shenzhen Bay Lab, 5F,9 Duxue Rd, Shenzhen 518055, Guangdong, Peoples R China
2.Chinese Acad Sci, Inst Mech, State Key Lab Nonlinear Mech, Beijing 100190, Peoples R China
3.Chinese Acad Sci, Inst Proc Engn, Beijing Key Lab Ion Liquids Clean Proc, CAS Key Lab Green Proc & Engn,State Key Lab Multip, Beijing 100190, Peoples R China
4.Peking Univ, Biomed Pioneering Innovat Ctr BIOP, Beijing 100871, Peoples R China
5.Peking Univ, Coll Chem & Mol Engn, Beijing Natl Lab Mol Sci, Beijing 100871, Peoples R China
6.Changping Lab, Beijing 102206, Peoples R China
推荐引用方式
GB/T 7714		 Wei, Jiachen,Xue, Yue,Liu, Yawei,et al. Steric repulsion introduced by loop constraints modulates the microphase separation of chromatins[J]. JOURNAL OF CHEMICAL PHYSICS,2024,160(5):9.
APA Wei, Jiachen.,Xue, Yue.,Liu, Yawei.,Tian, Hao.,Shao, Yingfeng.,...&邵颖峰.(2024).Steric repulsion introduced by loop constraints modulates the microphase separation of chromatins.JOURNAL OF CHEMICAL PHYSICS,160(5),9.
MLA Wei, Jiachen,et al."Steric repulsion introduced by loop constraints modulates the microphase separation of chromatins".JOURNAL OF CHEMICAL PHYSICS 160.5(2024):9.

入库方式： OAI收割

来源：力学研究所

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